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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgtcacctcttgcttaatttcaaaggtgtttttgattgattgatattgaattaatcttttttttttggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATCCTCATTGGGATAAGCCATTCTATGGTCCTAACCCTTGGCCTGATGCTG

Basic information

species Arabidopsis thaliana
transcript AT1G35190.1
intron # 2
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|86031356|gb|DR327109.1|DR327109
EST:     CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
EST: gi|86031354|gb|DR327107.1|DR327107
EST:     CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
EST: gi|86031355|gb|DR327108.1|DR327108
EST:     CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
EST: gi|86031347|gb|DR327100.1|DR327100
EST:     CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
EST: gi|86031346|gb|DR327099.1|DR327099
EST:     CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
EST: gi|86031353|gb|DR327106.1|DR327106
EST:     CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
EST: gi|86031340|gb|DR327093.1|DR327093
EST:     CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
EST: gi|86031350|gb|DR327103.1|DR327103
EST:     CTATACMCCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
EST: gi|86031335|gb|DR327088.1|DR327088
EST:     CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
EST: gi|86031341|gb|DR327094.1|DR327094
EST:     CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
EST: gi|86031349|gb|DR327102.1|DR327102
EST:     CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
EST: gi|86031351|gb|DR327104.1|DR327104
EST:     CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: CTATACACCTGTTCTTGATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
EST: gi|124970149|gb|EL043998.1|EL043998
EST:     GATGAACTTTTAGATCCCAAGAATCAAATCAATG                         GGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC
genomic: GATGAACTTTTAGATCCCAAGAATCAAATCAATGgtttgtgtca ... tggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaaggtgtttttgattgattgatattgaattaatcttttttttttggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATCCTCATTGGGATAAGCCATTCTATGGTCCTAACCCTTGGCCTGATGCTG
                            aattaat  putative branch site (score: 3)
                              ttaatctttttttttt  CT-rich tract
        tttttgattgattgat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtgtcacctcttgcttaatttcaaaggtgtttttgattgattgatattgaattaatcttttttttttggggtttagGGGATCACAAAGAGGGTTATTACATTGGAATTGAAGTTCCTAAAGATGATCCTCATTGGGATAAGCCATTCTATGGTCCTAACCCTTGGCCTGATGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG